import java.io.BufferedReader;
import java.io.FileReader;
import java.io.IOException;
import java.util.ArrayList;
import java.util.StringTokenizer;

public class SequenceCompare{
	
	private ArrayList<Sequence> SequenceList;
	public fastaCombine FastaObj;
	private class Sequence{
		public String string;
		public Double retTime;
		public Sequence(Double d, String s){
			string = s;
			retTime = d;
		}
	}
	
	public SequenceCompare(fastaCombine fast, String retTimeFileName) throws NumberFormatException, IOException{
		FastaObj = fast;
		readFileToArray(retTimeFileName);
	}
	
	public static void main(String[] args){
		
	}
	public void readFileToArray(String filename) throws NumberFormatException, IOException{
		SequenceList = new ArrayList<Sequence>();
		BufferedReader reader = new BufferedReader(new FileReader(filename));
		StringTokenizer tok = null;
		String readline = null;
		
		while((readline = reader.readLine()) != null){
        	tok = new StringTokenizer(readline, "\t",true);
            SequenceList.add(new Sequence(Double.valueOf(tok.nextToken()), tok.nextToken()));
		}
		reader.close();    
	}
	
}